Sequence
atgc intronic sequence ATGC exonic sequence...agacgtacataggaacatgaattctcatttgatttaaaggttccttcaatccaatataaaattgaacaatgcctaattgtacatttctacattttttcagTCAGCTCCGGAAGGATCTTTTATCTTACTTCATGGATGTGCTCATAACCCTACTGGTATCGATCCAACACCTGAACAGTGGGAAAAAATAGCTGATGTAA
Basic information
species | Glycine max |
transcript | GLYMA14G13480.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G13480.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM5G836910_T01 (Zea mays), 3'ss of exon 7
agacgtacataggaacatgaattctcatttgatttaaaggt---tccttcaatccaatataaaattgaacaatgcctaattgtacatttctacattttttcagTCAGCTCCGGAAGGATCTTTTATCTTACTTCATGGATGTGCTCATAACCCTACTGGTATCGATCCAACACCTGAACAGTGGGAAAAAATAGCTGATGTAA
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-gtcctgaatttatctatagagtttt-tttgttctgaaaatgaacacttcactttcaattgattgtttatgccat-tatctattcatttttttttcacaacagGCTGCTCCTGAAGGTTCTTTTGTTCTGCTACATGGTTGTGCTCACAACCCAACTGGAATAGACCCAACTCCTGAACAGTGGGAGAAAATTGCAGATGTCA
upper sequence: GLYMA14G13480.1 (Glycine max), 3'ss of exon 7
lower sequence: AT4G31990.4 (Arabidopsis thaliana), 3'ss of exon 8
--agacgtacataggaacatgaattctcatttgatttaaaggttccttcaatccaatataaaattgaacaatgcctaattgtacatttctacatttt------ttcagTCAGCTCCGGAAGGATCTTTTATCTTACTTCATGGATGTGCTCATAACCCTACTGGTATCGATCCAACACCTGAACAGTGGGAAAAAATAGCTGATGTAA
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tactgtctgtgtgataaaacgagtactt-----gtttaaagacaacgtgaaaccctgatggatt---ataatggttaatcttgaatttctgttatgtaaaatgtacagGAAGCTCCAGAAGGATCCTTCATCTTGCTTCACGGATGTGCTCACAACCCAACTGGAATTGACCCAACACCAGAACAGTGGGTAAAAATTGCTGATGTCA
upper sequence: GLYMA14G13480.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv04s0008g06040.t01 (Vitis vinifera), 3'ss of exon 9
-agacgtacataggaacatgaattctcatttgatttaaaggttccttcaatccaatataaaattgaacaatgcctaattgtacatttctacattttttcagTCAGCTCCGGAAGGATCTTTTATCTTACTTCATGGATGTGCTCATAACCCTACTGGTATCGATCCAACACCTGAACAGTGGGAAAAAATAGCTGATGTAA
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caaaagtttgttcttgcttgg-tattgtttcaatataattttcatttccaggctaaattcacttctttaattcaagagagtttatttatttttgtttccagGCAGCCCCAGAAGGATCTTTTGTGTTGCTTCATGGCTGTGCTCACAACCCAACTGGTATTGATCCAACTCCTGAACAGTGGGAAAAGATTGCTGATGTCAMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|192316560|gb|FK006795.1|FK006795EST: ATCCCAAGACAGTTGGCTTGGATTTTGAGGGCATGATAGAAGATATAAAG TCAGCTCCGGAAGGATCTTTTATCTTACTTCATGGATGTGCTCATAACCCT
genomic: ATCCCAAGACAGTTGGCTTGGATTTTGAGGGCATGATAGAAGATATAAAGgttagatcct ... attttttcagTCAGCTCCGGAAGGATCTTTTATCTTACTTCATGGATGTGCTCATAACCCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaatccaatataaaattgaacaatgcctaattgtacatttctacattttttcagTCAGCTCCGGAAGGATCTTTTATCTTACTTCATGGATGTGCTCATAACCCTACTGGTATCGATCCAACACCTGAACAGTGGGAAAAAATAGCTGATGTAA
gcctaat putative branch site (score: 3)
tttctacattttttc putative PPT
aatataaaattgaaca TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agacgtacataggaacatgaattctcatttgatttaaaggttccttcaatccaatataaaattgaacaatgcctaattgtacatttctacattttttcagTCAGCTCCGGAAGGATCTTTTATCTTACTTCATGGATGTGCTCATAACCCTACTGGTATCGATCCAACACCTGAACAGTGGGAAAAAATAGCTGATGTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT